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MCL coexpression mm9:2752: Difference between revisions

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{{MCL_coexpression_mm9
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cardiac muscle morphogenesis;0.0138763356260445;20181!GO:0055008;cardiac muscle morphogensis;0.0138763356260445;20181!GO:0055012;ventricular cardiac muscle cell differentiation;0.0138763356260445;20181!GO:0048644;muscle morphogenesis;0.0138763356260445;20181!GO:0014855;striated muscle cell proliferation;0.0138763356260445;20181!GO:0060038;cardiac muscle cell proliferation;0.0138763356260445;20181!GO:0055007;cardiac muscle cell differentiation;0.0148666877318437;20181!GO:0033002;muscle cell proliferation;0.0156078834662755;20181!GO:0016439;tRNA-pseudouridine synthase activity;0.0156078834662755;20181!GO:0035051;cardiac cell differentiation;0.0156078834662755;20181!GO:0009982;pseudouridine synthase activity;0.0170253821181593;20181!GO:0005520;insulin-like growth factor binding;0.018206203264297;16010!GO:0051146;striated muscle cell differentiation;0.0215454743793604;20181!GO:0016866;intramolecular transferase activity;0.0215454743793604;20181!GO:0009653;anatomical structure morphogenesis;0.0233592523767514;20181,16010!GO:0005496;steroid binding;0.0268096031911463;20181!GO:0003707;steroid hormone receptor activity;0.0268096031911463;20181!GO:0004879;ligand-dependent nuclear receptor activity;0.0268096031911463;20181!GO:0019838;growth factor binding;0.0268096031911463;16010!GO:0042692;muscle cell differentiation;0.0327334400516259;20181!GO:0001558;regulation of cell growth;0.0400619655199513;16010!GO:0016049;cell growth;0.0443625672618589;16010!GO:0048856;anatomical structure development;0.0449217625301017;20181,16010!GO:0008361;regulation of cell 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|gostat_on_MCL_coexpression=GO:0055010;ventricular cardiac muscle morphogenesis;0.0138763356260445;20181!GO:0055008;cardiac muscle morphogensis;0.0138763356260445;20181!GO:0055012;ventricular cardiac muscle cell differentiation;0.0138763356260445;20181!GO:0048644;muscle morphogenesis;0.0138763356260445;20181!GO:0014855;striated muscle cell proliferation;0.0138763356260445;20181!GO:0060038;cardiac muscle cell proliferation;0.0138763356260445;20181!GO:0055007;cardiac muscle cell differentiation;0.0148666877318437;20181!GO:0033002;muscle cell proliferation;0.0156078834662755;20181!GO:0016439;tRNA-pseudouridine synthase activity;0.0156078834662755;20181!GO:0035051;cardiac cell differentiation;0.0156078834662755;20181!GO:0009982;pseudouridine synthase activity;0.0170253821181593;20181!GO:0005520;insulin-like growth factor binding;0.018206203264297;16010!GO:0051146;striated muscle cell differentiation;0.0215454743793604;20181!GO:0016866;intramolecular transferase activity;0.0215454743793604;20181!GO:0009653;anatomical structure morphogenesis;0.0233592523767514;20181,16010!GO:0005496;steroid binding;0.0268096031911463;20181!GO:0003707;steroid hormone receptor activity;0.0268096031911463;20181!GO:0004879;ligand-dependent nuclear receptor activity;0.0268096031911463;20181!GO:0019838;growth factor binding;0.0268096031911463;16010!GO:0042692;muscle cell differentiation;0.0327334400516259;20181!GO:0001558;regulation of cell growth;0.0400619655199513;16010!GO:0016049;cell growth;0.0443625672618589;16010!GO:0048856;anatomical structure development;0.0449217625301017;20181,16010!GO:0008361;regulation of cell size;0.0462731375699493;16010!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002107!8.58e-12!22;UBERON:0007499!8.58e-12!22;UBERON:0006925!8.58e-12!22;UBERON:0009497!8.58e-12!22;UBERON:0000015!8.58e-12!22;UBERON:0002423!8.58e-12!22;UBERON:0006235!8.58e-12!22;UBERON:0008835!8.58e-12!22;UBERON:0003894!8.58e-12!22;UBERON:0004161!8.58e-12!22;UBERON:0008836!8.58e-12!22;UBERON:0009854!5.17e-11!23;UBERON:0009856!5.17e-11!23;UBERON:0002365!8.39e-10!25;UBERON:0002330!8.39e-10!25;UBERON:0005172!9.65e-09!49;UBERON:0005173!9.65e-09!49;UBERON:0002417!9.65e-09!49;UBERON:0000916!9.65e-09!49;UBERON:0009569!3.28e-07!66;UBERON:0005177!7.89e-07!79
}}

Latest revision as of 19:01, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:98902551..98902568,+p1@Igfbp4
Mm9::chr2:27532479..27532509,+p3@Rxra
Mm9::chr2:27532513..27532525,+p8@Rxra


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0055010ventricular cardiac muscle morphogenesis0.0138763356260445
GO:0055008cardiac muscle morphogensis0.0138763356260445
GO:0055012ventricular cardiac muscle cell differentiation0.0138763356260445
GO:0048644muscle morphogenesis0.0138763356260445
GO:0014855striated muscle cell proliferation0.0138763356260445
GO:0060038cardiac muscle cell proliferation0.0138763356260445
GO:0055007cardiac muscle cell differentiation0.0148666877318437
GO:0033002muscle cell proliferation0.0156078834662755
GO:0016439tRNA-pseudouridine synthase activity0.0156078834662755
GO:0035051cardiac cell differentiation0.0156078834662755
GO:0009982pseudouridine synthase activity0.0170253821181593
GO:0005520insulin-like growth factor binding0.018206203264297
GO:0051146striated muscle cell differentiation0.0215454743793604
GO:0016866intramolecular transferase activity0.0215454743793604
GO:0009653anatomical structure morphogenesis0.0233592523767514
GO:0005496steroid binding0.0268096031911463
GO:0003707steroid hormone receptor activity0.0268096031911463
GO:0004879ligand-dependent nuclear receptor activity0.0268096031911463
GO:0019838growth factor binding0.0268096031911463
GO:0042692muscle cell differentiation0.0327334400516259
GO:0001558regulation of cell growth0.0400619655199513
GO:0016049cell growth0.0443625672618589
GO:0048856anatomical structure development0.0449217625301017
GO:0008361regulation of cell size0.0462731375699493



Relative expression of the co-expression cluster over median <br>Analyst:




Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
liver8.58e-1222
epithelial sac8.58e-1222
digestive gland8.58e-1222
epithelium of foregut-midgut junction8.58e-1222
anatomical boundary8.58e-1222
hepatobiliary system8.58e-1222
foregut-midgut junction8.58e-1222
hepatic diverticulum8.58e-1222
liver primordium8.58e-1222
septum transversum8.58e-1222
liver bud8.58e-1222
digestive tract diverticulum5.17e-1123
sac5.17e-1123
exocrine gland8.39e-1025
exocrine system8.39e-1025
abdomen element9.65e-0949
abdominal segment element9.65e-0949
abdominal segment of trunk9.65e-0949
abdomen9.65e-0949
subdivision of trunk3.28e-0766
trunk region element7.89e-0779


TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs




JASPAR motifs


Motifs-log10(p-value)
MA0003.13.09356
MA0004.10.801718
MA0006.10.60285
MA0007.10.784593
MA0009.11.27673
MA0014.13.33797
MA0017.10.635031
MA0019.11.08369
MA0024.11.23079
MA0025.11.51835
MA0027.12.9431
MA0028.10.61552
MA0029.11.20789
MA0030.11.21482
MA0031.11.17722
MA0038.10.963265
MA0040.11.28983
MA0041.10.714279
MA0042.10.69885
MA0043.11.3775
MA0046.11.31428
MA0048.10.353763
MA0050.10.845669
MA0051.10.973068
MA0052.11.29825
MA0055.10.557057
MA0056.10
MA0057.10.896032
MA0058.10.690848
MA0059.10.705317
MA0060.10.502699
MA0061.11.33581
MA0063.10
MA0066.10.951196
MA0067.11.63197
MA0068.10.343188
MA0069.11.29861
MA0070.11.28847
MA0071.10.844726
MA0072.11.2796
MA0073.10.971751
MA0074.10.911576
MA0076.10.657929
MA0077.11.2569
MA0078.11.0091
MA0081.10.732313
MA0083.11.37668
MA0084.11.96428
MA0087.11.33189
MA0088.11.40099
MA0089.10
MA0090.10.762482
MA0091.10.816659
MA0092.10.762845
MA0093.10.62555
MA0095.10
MA0098.10
MA0100.10.89873
MA0101.10.71579
MA0103.10.647985
MA0105.10.405648
MA0106.11.01755
MA0107.10.640607
MA0108.21.10817
MA0109.10
MA0111.10.778753
MA0113.10.986839
MA0114.10.537669
MA0115.11.38041
MA0116.10.602598
MA0117.11.34691
MA0119.10.716476
MA0122.11.36752
MA0124.11.57762
MA0125.11.5017
MA0130.10
MA0131.11.07881
MA0132.10
MA0133.10
MA0135.11.4152
MA0136.10.933582
MA0139.10.462282
MA0140.10.898603
MA0141.10.671467
MA0142.11.16183
MA0143.11.00467
MA0144.10.541532
MA0145.10.794492
MA0146.10.151124
MA0147.10.556853
MA0148.10.820161
MA0149.10.722227
MA0062.20.412742
MA0035.20.903829
MA0039.21.10518
MA0138.21.07027
MA0002.20.466067
MA0137.20.668025
MA0104.20.48458
MA0047.20.962424
MA0112.20.794478
MA0065.21.44804
MA0150.10.784464
MA0151.10
MA0152.10.962542
MA0153.11.43238
MA0154.10.35067
MA0155.11.52001
MA0156.10.656895
MA0157.11.12772
MA0158.10
MA0159.10.569393
MA0160.10.823568
MA0161.10
MA0162.12.19629
MA0163.11.48428
MA0164.10.933981
MA0080.20.64167
MA0018.20.944669
MA0099.21.06348
MA0079.27.3104
MA0102.22.01714
MA0258.10.520639
MA0259.10.543506
MA0442.10
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